PDB Chemical Component V3A
The following tables include covalent bond distance, bond angle and torsion angle values for the experimental model and ideal geometries stored in the definition for this chemical component.
Bond Distances for V3A
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C2 |
N1 |
1.364 |
1.320 |
| C2 |
N3 |
1.302 |
1.316 |
| N1 |
C6 |
1.341 |
1.329 |
| N3 |
C4 |
1.374 |
1.329 |
| C6 |
N6 |
1.467 |
1.384 |
| C6 |
C5 |
1.409 |
1.405 |
| C4 |
C5 |
1.416 |
1.405 |
| C4 |
N9 |
1.332 |
1.372 |
| C2' |
C1' |
1.560 |
1.550 |
| C2' |
C3' |
1.589 |
1.555 |
| C5 |
N7 |
1.352 |
1.355 |
| N9 |
C1' |
1.424 |
1.465 |
| N9 |
C8 |
1.353 |
1.363 |
| C1' |
O4' |
1.312 |
1.436 |
| O3' |
C3' |
1.481 |
1.429 |
| C3' |
C4' |
1.365 |
1.544 |
| O4' |
C4' |
1.688 |
1.433 |
| N7 |
C8 |
1.302 |
1.301 |
| C4' |
C5' |
1.470 |
1.530 |
| O2B |
PB |
1.496 |
1.480 |
| C5' |
O5' |
1.409 |
1.429 |
| O5' |
PA |
1.635 |
1.611 |
| PB |
O3A |
1.620 |
1.610 |
| PB |
O1B |
1.529 |
1.611 |
| PB |
C3B |
1.819 |
1.822 |
| F3B |
C3B |
1.347 |
1.399 |
| O3A |
PA |
1.567 |
1.610 |
| PA |
O2A |
1.481 |
1.479 |
| PA |
O1A |
1.495 |
1.610 |
| C3B |
PG |
1.824 |
1.824 |
| PG |
O3G |
1.464 |
1.480 |
| PG |
O1G |
1.558 |
1.610 |
| PG |
O2G |
1.522 |
1.610 |
| O1A |
H1 |
0.950 |
0.967 |
| O1B |
H2 |
0.950 |
0.967 |
| C3B |
H3 |
1.100 |
1.090 |
| O1G |
H4 |
0.950 |
0.967 |
| O2G |
H5 |
0.949 |
0.967 |
| C5' |
H6 |
1.100 |
1.090 |
| C5' |
H7 |
1.100 |
1.090 |
| C4' |
H8 |
1.100 |
1.089 |
| C1' |
H9 |
1.100 |
1.090 |
| C2 |
H10 |
1.080 |
1.080 |
| N6 |
H11 |
1.000 |
0.969 |
| N6 |
H12 |
1.000 |
0.970 |
| C8 |
H13 |
1.080 |
1.081 |
| C2' |
H14 |
1.100 |
1.090 |
| C2' |
H15 |
1.100 |
1.090 |
| C3' |
H16 |
1.100 |
1.090 |
| O3' |
H17 |
0.950 |
0.966 |
Bond Angles for V3A
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
N1 |
C6 |
119.5 |
121.2 |
| N1 |
C2 |
H10 |
117.9 |
118.8 |
| N1 |
C6 |
N6 |
124.2 |
120.8 |
| N1 |
C6 |
C5 |
118.7 |
118.5 |
| N3 |
C4 |
C5 |
117.9 |
119.0 |
| N6 |
C6 |
C5 |
117.1 |
120.8 |
| C6 |
N6 |
H11 |
109.5 |
120.0 |
| C6 |
N6 |
H12 |
109.4 |
120.0 |
| C4 |
C5 |
C6 |
119.8 |
118.2 |
| C6 |
C5 |
N7 |
131.7 |
134.7 |
| C4 |
C5 |
N7 |
108.5 |
107.1 |
| C4 |
N9 |
C8 |
108.8 |
107.5 |
| C2' |
C1' |
H9 |
96.0 |
110.3 |
| C3' |
C2' |
H14 |
115.0 |
111.0 |
| C3' |
C2' |
H15 |
115.0 |
111.1 |
| C2' |
C3' |
H16 |
106.2 |
110.9 |
| C5 |
N7 |
C8 |
106.9 |
109.4 |
| N9 |
C1' |
H9 |
96.6 |
110.2 |
| N9 |
C8 |
N7 |
110.9 |
110.0 |
| N9 |
C8 |
H13 |
124.6 |
125.0 |
| O3' |
C3' |
H16 |
107.4 |
110.9 |
| C3' |
C4' |
H8 |
111.4 |
109.9 |
| O4' |
C4' |
H8 |
107.1 |
109.8 |
| N7 |
C8 |
H13 |
124.5 |
125.0 |
| C4' |
C5' |
H6 |
109.7 |
109.5 |
| C4' |
C5' |
H7 |
109.8 |
109.5 |
| O2B |
PB |
O1B |
110.2 |
109.4 |
| O2B |
PB |
C3B |
108.0 |
109.5 |
| O1B |
PB |
C3B |
111.1 |
109.5 |
| PB |
O1B |
H2 |
109.5 |
114.0 |
| PB |
C3B |
PG |
113.5 |
109.5 |
| PB |
C3B |
H3 |
106.0 |
109.5 |
| F3B |
C3B |
PG |
110.0 |
109.4 |
| F3B |
C3B |
H3 |
111.8 |
109.5 |
| O1A |
PA |
O2A |
108.5 |
109.5 |
| PA |
O1A |
H1 |
109.5 |
114.0 |
| C3B |
PG |
O3G |
109.8 |
109.4 |
| C3B |
PG |
O1G |
108.1 |
109.5 |
| C3B |
PG |
O2G |
109.0 |
109.5 |
| PG |
C3B |
H3 |
106.0 |
109.4 |
| O1G |
PG |
O3G |
109.9 |
109.5 |
| O2G |
PG |
O3G |
110.7 |
109.5 |
| O1G |
PG |
O2G |
109.3 |
109.5 |
| PG |
O1G |
H4 |
109.5 |
114.0 |
| PG |
O2G |
H5 |
109.5 |
114.0 |
| H6 |
C5' |
H7 |
109.5 |
109.5 |
| H11 |
N6 |
H12 |
109.5 |
120.0 |
| H14 |
C2' |
H15 |
109.5 |
111.1 |
Torsion Angles for V3A
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
N1 |
C6 |
N6 |
179.3 |
180.1 |
| C2 |
N1 |
C6 |
C5 |
359.6 |
0.1 |
| C2 |
N3 |
C4 |
C5 |
0.7 |
360.0 |
| C6 |
N1 |
C2 |
H10 |
180.2 |
180.0 |
| N6 |
C6 |
N1 |
C5 |
179.7 |
180.0 |
| N1 |
C6 |
N6 |
H11 |
0.0 |
360.0 |
| N1 |
C6 |
N6 |
H12 |
120.0 |
180.0 |
| C4 |
C5 |
C6 |
N1 |
0.8 |
360.0 |
| N1 |
C6 |
C5 |
N7 |
180.0 |
180.0 |
| N3 |
C4 |
C5 |
C6 |
359.1 |
360.0 |
| N3 |
C4 |
C5 |
N7 |
179.7 |
180.0 |
| N3 |
C4 |
N9 |
C8 |
179.7 |
180.2 |
| N1 |
C6 |
N6 |
C5 |
180.3 |
180.0 |
| C4 |
C5 |
C6 |
N6 |
181.1 |
180.0 |
| N6 |
C6 |
C5 |
N7 |
0.2 |
360.0 |
| H11 |
N6 |
C6 |
H12 |
240.0 |
180.0 |
| N1 |
C6 |
C5 |
N6 |
179.7 |
180.0 |
| C5 |
C6 |
N6 |
H11 |
179.7 |
179.9 |
| C5 |
C6 |
N6 |
H12 |
299.7 |
360.0 |
| C4 |
C5 |
C6 |
N7 |
180.8 |
180.0 |
| C6 |
C5 |
N7 |
C8 |
181.0 |
179.8 |
| N1 |
C6 |
C5 |
C4 |
0.8 |
360.0 |
| N6 |
C6 |
C5 |
C4 |
181.1 |
180.0 |
| C6 |
C5 |
C4 |
N7 |
179.4 |
180.0 |
| C5 |
C4 |
N9 |
C8 |
357.2 |
0.2 |
| C4 |
C5 |
N7 |
C8 |
0.2 |
359.8 |
| C4 |
N9 |
C1' |
H9 |
153.8 |
34.6 |
| C4 |
N9 |
C8 |
N7 |
3.1 |
359.7 |
| C4 |
N9 |
C8 |
H13 |
183.1 |
179.7 |
| N9 |
C1' |
C2' |
H9 |
100.7 |
122.0 |
| C3' |
C2' |
C1' |
H9 |
31.2 |
82.6 |
| O3' |
C3' |
C2' |
H16 |
242.4 |
236.4 |
| C2' |
C3' |
C4' |
H8 |
89.0 |
98.3 |
| H14 |
C2' |
C3' |
H15 |
128.5 |
124.1 |
| C4 |
C5 |
N7 |
C6 |
179.3 |
180.0 |
| N9 |
C8 |
N7 |
C5 |
358.0 |
0.4 |
| C5 |
N7 |
C8 |
H13 |
178.0 |
180.3 |
| C2' |
C1' |
N9 |
H9 |
259.6 |
237.9 |
| C5 |
N7 |
C8 |
N9 |
358.0 |
0.4 |
| C8 |
N9 |
C1' |
H9 |
342.7 |
214.4 |
| N7 |
C8 |
N9 |
H13 |
180.0 |
179.9 |
| C1' |
O4' |
C4' |
H8 |
227.1 |
238.7 |
| O3' |
C3' |
C2' |
H14 |
62.8 |
34.4 |
| O3' |
C3' |
C2' |
H15 |
294.3 |
270.3 |
| C2' |
C3' |
O3' |
H16 |
116.9 |
123.6 |
| O3' |
C3' |
C4' |
H8 |
323.8 |
340.1 |
| O4' |
C4' |
C3' |
H8 |
244.0 |
240.4 |
| C3' |
C4' |
C5' |
H6 |
171.0 |
64.8 |
| C3' |
C4' |
C5' |
H7 |
291.3 |
304.8 |
| C3' |
C4' |
O4' |
H8 |
118.8 |
119.6 |
| O4' |
C4' |
C5' |
H6 |
53.3 |
306.6 |
| O4' |
C4' |
C5' |
H7 |
173.7 |
186.6 |
| N9 |
C8 |
N7 |
H13 |
180.0 |
180.1 |
| H6 |
C5' |
C4' |
H7 |
239.7 |
120.0 |
| O1B |
PB |
O2B |
C3B |
238.4 |
240.0 |
| O2B |
PB |
O1B |
H2 |
360.0 |
180.0 |
| O2B |
PB |
C3B |
PG |
206.4 |
300.0 |
| O2B |
PB |
C3B |
H3 |
90.6 |
180.0 |
| O5' |
PA |
O1A |
H1 |
237.2 |
60.0 |
| O2B |
PB |
O1B |
C3B |
119.7 |
120.0 |
| O1B |
PB |
C3B |
PG |
327.4 |
60.0 |
| O1B |
PB |
C3B |
H3 |
211.6 |
300.0 |
| O2B |
PB |
C3B |
O1B |
239.0 |
240.0 |
| C3B |
PB |
O1B |
H2 |
240.3 |
60.0 |
| F3B |
C3B |
PB |
PG |
123.4 |
120.0 |
| F3B |
C3B |
PB |
H3 |
239.2 |
239.9 |
| PB |
C3B |
PG |
O3G |
103.3 |
300.0 |
| PB |
C3B |
PG |
O1G |
343.4 |
60.0 |
| PB |
C3B |
PG |
O2G |
224.7 |
180.0 |
| PG |
C3B |
PB |
H3 |
115.9 |
120.0 |
| PB |
C3B |
F3B |
PG |
234.6 |
240.0 |
| PB |
C3B |
F3B |
H3 |
117.2 |
120.1 |
| F3B |
C3B |
PG |
O3G |
340.1 |
180.0 |
| F3B |
C3B |
PG |
O1G |
220.3 |
300.0 |
| F3B |
C3B |
PG |
O2G |
101.5 |
60.0 |
| PG |
C3B |
F3B |
H3 |
242.6 |
240.1 |
| O3A |
PA |
O1A |
H1 |
116.9 |
300.0 |
| O2A |
PA |
O1A |
H1 |
0.0 |
180.0 |
| PB |
C3B |
PG |
H3 |
244.1 |
240.0 |
| F3B |
C3B |
PG |
H3 |
121.0 |
120.0 |
| O1G |
PG |
C3B |
O3G |
240.1 |
120.0 |
| O2G |
PG |
C3B |
O3G |
121.4 |
240.0 |
| O1G |
PG |
C3B |
O2G |
118.7 |
240.0 |
| C3B |
PG |
O1G |
H4 |
119.8 |
60.0 |
| C3B |
PG |
O2G |
H5 |
239.2 |
180.0 |
| C3B |
PG |
O3G |
O1G |
241.2 |
120.0 |
| C3B |
PG |
O3G |
O2G |
120.3 |
240.0 |
| O3G |
PG |
C3B |
H3 |
219.1 |
60.0 |
| O1G |
PG |
O3G |
O2G |
239.1 |
120.0 |
| O3G |
PG |
O1G |
H4 |
0.0 |
179.9 |
| O3G |
PG |
O2G |
H5 |
0.0 |
60.0 |
| C3B |
PG |
O1G |
O3G |
119.8 |
240.1 |
| C3B |
PG |
O1G |
O2G |
241.5 |
120.0 |
| O1G |
PG |
C3B |
H3 |
99.3 |
180.0 |
| O2G |
PG |
O1G |
O3G |
238.3 |
120.0 |
| O1G |
PG |
O2G |
H5 |
121.2 |
300.0 |
| C3B |
PG |
O2G |
O3G |
239.1 |
120.0 |
| C3B |
PG |
O2G |
O1G |
118.0 |
240.0 |
| O2G |
PG |
C3B |
H3 |
340.5 |
300.0 |
| O1G |
PG |
O2G |
O3G |
121.2 |
240.0 |
| O2G |
PG |
O1G |
H4 |
238.3 |
300.0 |
| H1 |
O1A |
PA |
O2A |
0.0 |
180.0 |
| H2 |
O1B |
PB |
C3B |
240.3 |
60.0 |
| PB |
C3B |
H3 |
PG |
120.9 |
120.0 |
| F3B |
C3B |
H3 |
PG |
240.2 |
240.1 |
| H3 |
C3B |
PG |
O3G |
219.1 |
60.0 |
| H3 |
C3B |
PG |
O1G |
99.3 |
180.0 |
| H3 |
C3B |
PG |
O2G |
340.5 |
300.0 |
| H4 |
O1G |
PG |
O3G |
0.0 |
179.9 |
| H4 |
O1G |
PG |
O2G |
238.3 |
300.0 |
| H5 |
O2G |
PG |
O3G |
0.0 |
60.0 |
| C4' |
C5' |
H6 |
H7 |
120.5 |
240.0 |
| C4' |
C5' |
H7 |
H6 |
239.5 |
120.0 |
| H8 |
C4' |
C5' |
H6 |
294.6 |
185.8 |
| H8 |
C4' |
C5' |
H7 |
54.9 |
65.7 |
| H10 |
C2 |
N1 |
C6 |
180.2 |
180.0 |
| H11 |
N6 |
C6 |
C5 |
179.7 |
179.9 |
| C6 |
N6 |
H11 |
H12 |
120.0 |
180.0 |
| H12 |
N6 |
C6 |
C5 |
299.7 |
360.0 |
| C6 |
N6 |
H12 |
H11 |
240.0 |
180.0 |
| N9 |
C8 |
H13 |
N7 |
180.0 |
179.9 |
| H14 |
C2' |
C1' |
H9 |
147.0 |
200.4 |
| C3' |
C2' |
H14 |
H15 |
228.8 |
235.8 |
| H14 |
C2' |
C3' |
H16 |
180.4 |
158.0 |
| H15 |
C2' |
C1' |
H9 |
275.5 |
324.6 |
| C3' |
C2' |
H15 |
H14 |
131.2 |
124.1 |
| H15 |
C2' |
C3' |
H16 |
51.9 |
33.9 |
| H16 |
C3' |
C2' |
H14 |
180.4 |
158.0 |
| H16 |
C3' |
C2' |
H15 |
51.9 |
33.9 |
| H16 |
C3' |
C4' |
H8 |
201.7 |
216.4 |
| H17 |
O3' |
C3' |
H16 |
11.9 |
297.9 |